Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 13 of 121
Found at i:2115656 original size:15 final size:15
Alignment explanation
Indices: 2115614--2115674 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
2115604 CTCAAGTTAA
2115614 AATTAATAAAATAAT
1 AATTAATAAAATAAT
* * *
2115629 AA-TGATGACAATAGT
1 AATTAAT-AAAATAAT
2115644 AATTAATAAAATAAAT
1 AATTAATAAAAT-AAT
*
2115660 AAATAACTAAAATAA
1 AATTAA-TAAAATAA
2115675 GAAAAAGCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
14 3 0.09
15 14 0.40
16 12 0.34
17 6 0.17
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (15 bp):
AATTAATAAAATAAT
Found at i:2117033 original size:16 final size:16
Alignment explanation
Indices: 2117012--2117043 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2117002 AAATAAAATA
*
2117012 ATATTTATTTTATATT
1 ATATTTAATTTATATT
2117028 ATATTTAATTTATATT
1 ATATTTAATTTATATT
2117044 TAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATTTAATTTATATT
Found at i:2117214 original size:21 final size:20
Alignment explanation
Indices: 2117186--2117224 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2117176 ATATAAATTT
2117186 TAAAAAATAATTTTAATTAA
1 TAAAAAATAATTTTAATTAA
*
2117206 TAAATAAATTATTTTAATT
1 TAAA-AAATAATTTTAATT
2117225 TAATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAAAATAATTTTAATTAA
Found at i:2117250 original size:16 final size:16
Alignment explanation
Indices: 2117229--2117261 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2117219 TTAATTTAAT
2117229 TTTTAT-ATACATTTTA
1 TTTTATCATA-ATTTTA
2117245 TTTTATCATAATTTTA
1 TTTTATCATAATTTTA
2117261 T
1 T
2117262 AGATTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATCATAATTTTA
Found at i:2117697 original size:8 final size:8
Alignment explanation
Indices: 2117684--2117720 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
2117674 TTTTTGTTTC
2117684 AATTTTTT
1 AATTTTTT
2117692 AATTTTTT
1 AATTTTTT
2117700 -ATGTTTTT
1 AAT-TTTTT
2117708 AATTTTTT
1 AATTTTTT
2117716 -ATTTT
1 AATTTT
2117721 AATGATGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.26
8 18 0.67
9 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (8 bp):
AATTTTTT
Found at i:2117704 original size:23 final size:23
Alignment explanation
Indices: 2117671--2117720 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2117661 GAGTTGTACT
*
2117671 TTTTTTTTG-TTTCAATTTTTTAA
1 TTTTTTATGTTTTCAATTTTTT-A
*
2117694 TTTTTTATGTTTTTAATTTTTTA
1 TTTTTTATGTTTTCAATTTTTTA
2117717 TTTT
1 TTTT
2117721 AATGATGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTTATGTTTTCAATTTTTTA
Found at i:2117706 original size:16 final size:16
Alignment explanation
Indices: 2117687--2117717 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2117677 TTGTTTCAAT
2117687 TTTTTAATTTTTTATG
1 TTTTTAATTTTTTATG
2117703 TTTTTAATTTTTTAT
1 TTTTTAATTTTTTAT
2117718 TTTAATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTAATTTTTTATG
Found at i:2118452 original size:15 final size:15
Alignment explanation
Indices: 2118434--2118466 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2118424 TGTTTGTGAT
*
2118434 TAAAAACGTCTTAAA
1 TAAAAACATCTTAAA
2118449 TAAAAACATCTTAAA
1 TAAAAACATCTTAAA
2118464 TAA
1 TAA
2118467 TTCTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (15 bp):
TAAAAACATCTTAAA
Found at i:2118779 original size:62 final size:61
Alignment explanation
Indices: 2118667--2119109 Score: 263
Period size: 62 Copynumber: 7.1 Consensus size: 61
2118657 AGTGAAGGTT
* * *
2118667 ATTATTTAAAGCATTTTT--TACAAAAATACATTAAATAATCCTCTTTTAAAAAATATTAGAG
1 ATTATTTAAAGTATTTTTAATAAAAAAATACATTAAATAAT-C-ATTTTAAAAAATATTAGAG
* * * *
2118728 ATCATTTAAGGTATTTTTAATAAAAAAAATACATT-AATAATACATTTTAAAAAAT-TACATGAT
1 ATTATTTAAAGTATTTTTAAT-AAAAAAATACATTAAATAAT-CATTTTAAAAAATAT-TA-GAG
* * * * *
2118791 ATTATTT-AAGAAGTTTTTAAT-CAAAAATGCCTTAAATAATCATCTTTAAAAAAATATTAAAG
1 ATTATTTAAAGTA-TTTTTAATAAAAAAATACATTAAATAATCAT-TTT-AAAAAATATTAGAG
* * * *
2118853 ATTATTTAAAGTATTTTTTAT-CAAAAATATC-TTAAATAATCCATTTAAAAAAATATTAAAG
1 ATTATTTAAAGTATTTTTAATAAAAAAATA-CATTAAATAAT-CATTTTAAAAAATATTAGAG
* * * * *
2118914 ATTATTTAAAGCATTTTT--GACAAAAATACTTTAAATAATCTCTTTTAAACAAATA-TATGAG
1 ATTATTTAAAGTATTTTTAATAAAAAAATACATTAAATAATC-ATTTTAAA-AAATATTA-GAG
* * * * *
2118975 ATTATTTAAGGTATTTTTAGT-CAAAAATACTTTAAATAAT-ATCATTT--AAAATTTTAAAGAG
1 ATTATTTAAAGTATTTTTAATAAAAAAATACATTAAATAATCAT--TTTAAAAAATATT--AGAG
* * *
2119036 TATTATTTAAGGCTTTTTTTAACAAAAAAACGT-C-TTAAATAATCTCATTTTAAAAAAATATTA
1 -ATTATTTAAAG-TATTTTTAATAAAAAAA--TACATTAAATAA--TCATTTT-AAAAAATATTA
*
2119099 AAG
59 GAG
*
2119102 GTTATTTA
1 ATTATTTA
2119110 TGACATTTTT
Statistics
Matches: 308, Mismatches: 38, Indels: 68
0.74 0.09 0.16
Matches are distributed among these distances:
59 6 0.02
60 28 0.09
61 85 0.28
62 91 0.30
63 47 0.15
64 26 0.08
65 11 0.04
66 5 0.02
67 2 0.01
68 7 0.02
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (61 bp):
ATTATTTAAAGTATTTTTAATAAAAAAATACATTAAATAATCATTTTAAAAAATATTAGAG
Found at i:2119266 original size:63 final size:62
Alignment explanation
Indices: 2119103--2119268 Score: 185
Period size: 62 Copynumber: 2.6 Consensus size: 62
2119093 ATATTAAAGG
* * *
2119103 TTATTTATGACATTTTTGGATAAAAAAACTTCCTAAATAATCTCCTATTTTTTTTAAATAGCAT
1 TTATTTAAGATATTTTTAGATAAAAAAACTT--TAAATAATCTCCTATTTTTTTTAAATAGCAT
* * * *
2119167 TTATTTAAGGTATTTTTAGATAAAAAAA-TCTAAAATAATCTCTTCA-TTTTTTTAAGTAGCAT
1 TTATTTAAGATATTTTTAGATAAAAAAACT-TTAAATAATCTCCT-ATTTTTTTTAAATAGCAT
*
2119229 TTATTTGAGATATTTTTTA-ATAAAAAATACTTTAAATAAT
1 TTATTTAAGATA-TTTTTAGATAAAAAA-ACTTTAAATAAT
2119269 ATTCAATAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
62 44 0.51
63 17 0.20
64 26 0.30
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (62 bp):
TTATTTAAGATATTTTTAGATAAAAAAACTTTAAATAATCTCCTATTTTTTTTAAATAGCAT
Found at i:2120266 original size:12 final size:12
Alignment explanation
Indices: 2120253--2120293 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
2120243 AATTTCATTT
*
2120253 AATTAAAAATTT
1 AATTAAAAATTA
2120265 AA-T-AAAATTAA
1 AATTAAAAATT-A
2120276 AATTAAAAATTA
1 AATTAAAAATTA
2120288 AATTAA
1 AATTAA
2120294 TTGTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 10 0.40
13 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATTAAAAATTA
Found at i:2121462 original size:11 final size:11
Alignment explanation
Indices: 2121426--2121455 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
2121416 TGTGGCACTT
2121426 TTTTTTAATTA
1 TTTTTTAATTA
2121437 TTTTTTAATTA
1 TTTTTTAATTA
2121448 TTTTTTAA
1 TTTTTTAA
2121456 AGATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTTAATTA
Found at i:2122391 original size:20 final size:21
Alignment explanation
Indices: 2122360--2122398 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2122350 TGACTTGATT
2122360 AATTACAATAAAATATTAAAA
1 AATTACAATAAAATATTAAAA
*
2122381 AATTA-AATAAAATTTTAA
1 AATTACAATAAAATATTAA
2122399 TTATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTACAATAAAATATTAAAA
Found at i:2122754 original size:18 final size:19
Alignment explanation
Indices: 2122714--2122754 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
2122704 TTTATTTCAA
2122714 ATAAAATATTGATTTATAT
1 ATAAAATATTGATTTATAT
* *
2122733 -TAAAA-ATTTATTTATGT
1 ATAAAATATTGATTTATAT
2122750 ATAAA
1 ATAAA
2122755 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
ATAAAATATTGATTTATAT
Found at i:2122790 original size:31 final size:30
Alignment explanation
Indices: 2122731--2122790 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2122721 ATTGATTTAT
** *
2122731 ATTAAAAATTTATTTATGTATAAATTAAAG
1 ATTAAAAATTTATTTAAATAAAAATTAAAG
2122761 ATTAAAAATTTATTTAAATACAAAATTAAA
1 ATTAAAAATTTATTTAAATA-AAAATTAAA
2122791 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTAAAAATTTATTTAAATAAAAATTAAAG
Found at i:2122985 original size:2 final size:2
Alignment explanation
Indices: 2122978--2123015 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2122968 AAAACTCACT
2122978 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2123016 ACACAATATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2125114 original size:19 final size:20
Alignment explanation
Indices: 2125090--2125141 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
2125080 TTTTTTTTTA
*
2125090 ATTTTTTTTATATATT-ATT
1 ATTTTTTTTATATATTAAGT
*
2125109 ATTTTTGTTAT-T-TTAAGT
1 ATTTTTTTTATATATTAAGT
2125127 -TTTTTTTTATATATT
1 ATTTTTTTTATATATT
2125142 TATGCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 11 0.41
18 4 0.15
19 12 0.44
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (20 bp):
ATTTTTTTTATATATTAAGT
Found at i:2125672 original size:13 final size:13
Alignment explanation
Indices: 2125656--2125690 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
2125646 AACCAAACCT
2125656 TCAAAACCTTTAC
1 TCAAAACCTTTAC
*
2125669 TC-AAACCCTTAC
1 TCAAAACCTTTAC
2125681 TCAAAACCTT
1 TCAAAACCTT
2125691 CTGAAAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (13 bp):
TCAAAACCTTTAC
Found at i:2132032 original size:17 final size:18
Alignment explanation
Indices: 2132006--2132041 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
2131996 TATATTTAGG
2132006 AAAAAGAGAGAAAAAAAAA
1 AAAAAGAG-GAAAAAAAAA
2132025 AAAAAGAGGAAAAAAAA
1 AAAAAGAGGAAAAAAAA
2132042 GATGAGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAGGAAAAAAAAA
Found at i:2139825 original size:13 final size:13
Alignment explanation
Indices: 2139807--2139833 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2139797 AGTGTTAGAT
2139807 TTCTATTTTCACC
1 TTCTATTTTCACC
2139820 TTCTATTTTCACC
1 TTCTATTTTCACC
2139833 T
1 T
2139834 ATCATAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.56
Consensus pattern (13 bp):
TTCTATTTTCACC
Found at i:2141505 original size:30 final size:30
Alignment explanation
Indices: 2141462--2141522 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
2141452 TATTTTTTAA
* * *
2141462 TTAATTATATATATTTATATAATAATATTT
1 TTAAATATATATATTTAAAAAATAATATTT
*
2141492 TTAAATATTTATATTTAAAAAATAATATTT
1 TTAAATATATATATTTAAAAAATAATATTT
2141522 T
1 T
2141523 ATTAATTTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TTAAATATATATATTTAAAAAATAATATTT
Found at i:2143445 original size:27 final size:27
Alignment explanation
Indices: 2143393--2143445 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
2143383 TCAGAGATAG
* *
2143393 TAAGTTAATGATAGTTTTCTCTGTTAC
1 TAAGTTAATGATAGTTATCTCAGTTAC
*
2143420 TAAGTTAATGATCG-TATCATCAGTTA
1 TAAGTTAATGATAGTTATC-TCAGTTA
2143446 GTAAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (27 bp):
TAAGTTAATGATAGTTATCTCAGTTAC
Found at i:2144951 original size:21 final size:21
Alignment explanation
Indices: 2144927--2144985 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2144917 TTTTTCATCT
* *
2144927 AAATTCATACTCTCTCTTTAA
1 AAATTCATTCTCTCTCTCTAA
* *
2144948 AAATTCTTTCTTTCTCTCTAA
1 AAATTCATTCTCTCTCTCTAA
*
2144969 AAATTTATTCTCTCTCT
1 AAATTCATTCTCTCTCT
2144986 AAAACCTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTCATTCTCTCTCTCTAA
Found at i:2160415 original size:11 final size:11
Alignment explanation
Indices: 2160399--2160423 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2160389 ATAGGAAGTG
2160399 TTCAGAAAGAT
1 TTCAGAAAGAT
2160410 TTCAGAAAGAT
1 TTCAGAAAGAT
2160421 TTC
1 TTC
2160424 CTCTTCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (11 bp):
TTCAGAAAGAT
Found at i:2162961 original size:12 final size:12
Alignment explanation
Indices: 2162944--2162976 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2162934 GATATTTAGG
2162944 AAAAAAAGAGAA
1 AAAAAAAGAGAA
*
2162956 AAAAAAAAAGAA
1 AAAAAAAGAGAA
2162968 AAAAAAAGA
1 AAAAAAAGA
2162977 TAAGGCCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:2162963 original size:14 final size:13
Alignment explanation
Indices: 2162944--2162974 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
2162934 GATATTTAGG
2162944 AAAAAAAGAGAAAA
1 AAAAAAAGA-AAAA
2162958 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
2162971 AAAA
1 AAAA
2162975 GATAAGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:2176236 original size:3 final size:3
Alignment explanation
Indices: 2176230--2176264 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2176220 ACGATGATGA
2176230 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2176265 CCGATATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2177392 original size:13 final size:13
Alignment explanation
Indices: 2177374--2177400 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2177364 AGTGTTAGAT
2177374 TTCTATTTTCACC
1 TTCTATTTTCACC
2177387 TTCTATTTTCACC
1 TTCTATTTTCACC
2177400 T
1 T
2177401 ACCATAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.56
Consensus pattern (13 bp):
TTCTATTTTCACC
Found at i:2192130 original size:49 final size:48
Alignment explanation
Indices: 2191874--2192308 Score: 581
Period size: 49 Copynumber: 8.9 Consensus size: 48
2191864 AGCTCCTCTA
* * *
2191874 CTCTCAGCAGAGGCTCCACAATTTTAAAATTCACATCTGAAAAAACTC
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTGAAAAAGCTC
*
2191922 CTCTCAACAGAGGCTCCACAACTTTAAAATT-TCATCTGAAAAAAGCTC
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTG-AAAAAGCTC
* * *
2191970 CTCTCAACAGAGGCTCAATAACTTTAAAA-TCTCATCTGAAAAAGCTCATCTC
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTGAAAAAG-----CTC
* *
2192022 CTCTCAGCAGAGGCTCAATAACTTTAAAA-TCTCATCTGAAAAAGCTC
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTGAAAAAGCTC
* *
2192069 CTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCTC
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATC-TGAAAAAGCTC
*
2192118 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCTC
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATC-TGAAAAAGCTC
* * *
2192167 CTCTCAGAAGAGGCTCTACAACTTTAAAATTCTCATCTTGAAAAAGCTT
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATC-TGAAAAAGCTC
*
2192216 CTCTCAGCAGAGGCTCCATAACTTTAAAATTCTCATCTCG-AAAAGCTC
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCT-GAAAAAGCTC
**
2192264 CTCTCATTAGAGGCTCCACAACTTTAAAATTCTCATCTTGAAAAA
1 CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATC-TGAAAAA
2192309 TTTGACGCCG
Statistics
Matches: 352, Mismatches: 23, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
47 42 0.12
48 121 0.34
49 143 0.41
52 46 0.13
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (48 bp):
CTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCATCTGAAAAAGCTC
Found at i:2192416 original size:23 final size:22
Alignment explanation
Indices: 2192366--2192667 Score: 174
Period size: 22 Copynumber: 13.8 Consensus size: 22
2192356 CGAATCGATT
*
2192366 TTATGCCCGGAGGTCTTAGAAA
1 TTATGCCCGGAGGTCTTACAAA
* *
2192388 TTATGCCCTGTGGTCTTACAGAA
1 TTATGCCCGGAGGTCTTACA-AA
* * *
2192411 TTATGCCCGGAAGTCTTAGACA
1 TTATGCCCGGAGGTCTTACAAA
* * *
2192433 TCATGCCTGGAGGTCTTATAGAA
1 TTATGCCCGGAGGTCTTACA-AA
* * * * *
2192456 TCAT--TCGAAAGTCTTAAAAA
1 TTATGCCCGGAGGTCTTACAAA
*
2192476 TCATGCCCGGAGGTCTTACAGAA
1 TTATGCCCGGAGGTCTTACA-AA
* *** *
2192499 TCAT-CCAAAAAGTCTTTA-AAA
1 TTATGCCCGGAGGTC-TTACAAA
* *
2192520 TCATGCCCAGAGGTCTTACAGAA
1 TTATGCCCGGAGGTCTTACA-AA
** * *
2192543 TTA--CTTGAAGGTCTTAAAAA
1 TTATGCCCGGAGGTCTTACAAA
*
2192563 TCATGCCCGGAGGTCTTACAGAA
1 TTATGCCCGGAGGTCTTACA-AA
* *
2192586 TTAT--CTGAAGGTCTTACAAA
1 TTATGCCCGGAGGTCTTACAAA
*
2192606 TCATGCCCGGAGGTCTTACAGAA
1 TTATGCCCGGAGGTCTTACA-AA
* *
2192629 TTAT--CTGAAGGTCTTACAGAA
1 TTATGCCCGGAGGTCTTACA-AA
2192650 TTATGCCCGGAGGTCTTA
1 TTATGCCCGGAGGTCTTA
2192668 GAAGTCATAC
Statistics
Matches: 212, Mismatches: 51, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
20 15 0.07
21 59 0.28
22 82 0.39
23 56 0.26
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (22 bp):
TTATGCCCGGAGGTCTTACAAA
Found at i:2192482 original size:43 final size:44
Alignment explanation
Indices: 2192378--2192667 Score: 309
Period size: 43 Copynumber: 6.6 Consensus size: 44
2192368 ATGCCCGGAG
* * * * * * *
2192378 GTCTTAGAAATTATGCCCTGTGGTCTTACAGAATTATGCCCGGAA
1 GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTAT-TCTGAAA
* * * * *
2192423 GTCTTAGACATCATGCCTGGAGGTCTTATAGAATCATTC-GAAA
1 GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATTCTGAAA
* * **
2192466 GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCCAAAAA
1 GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATTCTGAAA
* * * *
2192510 GTCTTTAAAATCATGCCCAGAGGTCTTACAGAATTACT-TGAAG
1 GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATTCTGAAA
*
2192553 GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTA-TCTGAAG
1 GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATTCTGAAA
* *
2192596 GTCTTACAAATCATGCCCGGAGGTCTTACAGAATTA-TCTGAAG
1 GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATTCTGAAA
* *
2192639 GTCTTACAGAATTATGCCCGGAGGTCTTA
1 GTCTTA-AAAATCATGCCCGGAGGTCTTA
2192668 GAAGTCATAC
Statistics
Matches: 213, Mismatches: 29, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.00
43 126 0.59
44 56 0.26
45 30 0.14
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
GTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATTCTGAAA
Found at i:2192543 original size:87 final size:87
Alignment explanation
Indices: 2192376--2192667 Score: 340
Period size: 87 Copynumber: 3.3 Consensus size: 87
2192366 TTATGCCCGG
* * * * * * * * *
2192376 AGGTCTTAGAAATTATGCCCTGTGGTCTTACAGAATTATGCCCGGAAGTCTTAGACATCATGCCT
1 AGGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTAT-CCAGAAAGTCTTACAAATCATGCCC
* *
2192441 GGAGGTCTTATAGAATCATTCGA
65 GGAGGTCTTACAGAATTATTCGA
* * *
2192464 AAGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCCAAAAAGTCTTTA-AAATCATGCCC
1 AGGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATCCAGAAAGTC-TTACAAATCATGCCC
*
2192528 AGAGGTCTTACAGAATTACTT-GA
65 GGAGGTCTTACAGAATTA-TTCGA
* *
2192551 AGGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTAT-CTGAAGGTCTTACAAATCATGCCCG
1 AGGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATCCAGAAAGTCTTACAAATCATGCCCG
2192615 GAGGTCTTACAGAATTA-TCTGA
66 GAGGTCTTACAGAATTATTC-GA
* *
2192637 AGGTCTTACAGAATTATGCCCGGAGGTCTTA
1 AGGTCTTA-AAAATCATGCCCGGAGGTCTTA
2192668 GAAGTCATAC
Statistics
Matches: 176, Mismatches: 22, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
84 1 0.01
85 3 0.02
86 44 0.25
87 90 0.51
88 38 0.22
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (87 bp):
AGGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATCCAGAAAGTCTTACAAATCATGCCCG
GAGGTCTTACAGAATTATTCGA
Found at i:2192653 original size:21 final size:21
Alignment explanation
Indices: 2192530--2192653 Score: 119
Period size: 21 Copynumber: 5.8 Consensus size: 21
2192520 TCATGCCCAG
2192530 AGGTCTTACAGAATTA-CTTGA
1 AGGTCTTACAGAATTATC-TGA
* * * *
2192551 AGGTCTTA-AAAATCATGCCCGG
1 AGGTCTTACAGAATTAT--CTGA
2192573 AGGTCTTACAGAATTATCTGA
1 AGGTCTTACAGAATTATCTGA
* * *
2192594 AGGTCTTACA-AATCATGCCCGG
1 AGGTCTTACAGAATTAT--CTGA
2192616 AGGTCTTACAGAATTATCTGA
1 AGGTCTTACAGAATTATCTGA
2192637 AGGTCTTACAGAATTAT
1 AGGTCTTACAGAATTAT
2192654 GCCCGGAGGT
Statistics
Matches: 82, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
20 10 0.12
21 39 0.48
22 21 0.26
23 12 0.15
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (21 bp):
AGGTCTTACAGAATTATCTGA
Found at i:2192656 original size:130 final size:129
Alignment explanation
Indices: 2192376--2192667 Score: 338
Period size: 130 Copynumber: 2.2 Consensus size: 129
2192366 TTATGCCCGG
* * * * *
2192376 AGGTCTTAGAAATTATGCCCTGTGGTCTTACAGAATTATGCCCGGAAGTCTTAGACATCATGCCT
1 AGGTCTTA-AAATTATGCCCAGAGGTCTTACAGAATTA--CCCGGAAGTCTTAAAAATCATGCCC
*
2192441 GGAGGTCTTATAGAATCATTCGAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCCA
63 GGAGGTCTTACAGAATCATTCGAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCCA
2192506 AA
128 AA
* * **
2192508 AAGTCTTTAAAATCATGCCCAGAGGTCTTACAGAATTA-CTTGAAGGTCTTAAAAATCATGCCCG
1 AGGTC-TTAAAATTATGCCCAGAGGTCTTACAGAATTACCCGGAA-GTCTTAAAAATCATGCCCG
* * * * *
2192572 GAGGTCTTACAGAATTA-TCTGAAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAATTAT-CT
64 GAGGTCTTACAGAATCATTC-GAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCCA
*
2192635 GA
128 AA
*
2192637 AGGTCTTACAGAATTATGCCCGGAGGTCTTA
1 AGGTCTTA-A-AATTATGCCCAGAGGTCTTA
2192668 GAAGTCATAC
Statistics
Matches: 136, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
128 3 0.02
129 13 0.10
130 87 0.64
132 30 0.22
133 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
AGGTCTTAAAATTATGCCCAGAGGTCTTACAGAATTACCCGGAAGTCTTAAAAATCATGCCCGGA
GGTCTTACAGAATCATTCGAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCCAAA
Found at i:2192666 original size:152 final size:150
Alignment explanation
Indices: 2192514--2192851 Score: 392
Period size: 152 Copynumber: 2.2 Consensus size: 150
2192504 CAAAAAGTCT
* ** *
2192514 TTAAAATCATGCCCAGAGGTCTTACAGAATTA-CTTGAAGGTCTTAAAAATCATGCCCGGAGGTC
1 TTAAAATCATGCCCAGAGGTCTTACAGAATCATC-CAAAAGTCTTAAAAATCATGCCCGGAGGTC
* ** ** * * * *
2192578 TTACAGAATTATCTGAAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAATTATCTGAAGGTCT
65 TTACAGAATCATCCAAAAATCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCTAAAAGTCT
* *
2192643 TACAGAATTATGCCCGGAGGTC
130 TA-AAAATCATGCCCGGAGGTC
* * * *
2192665 TTAGAAGTCAT-ACCTGAAGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCGGAGGT
1 TTA-AAATCATGCCCAG-AGGTCTTACAGAATCATCCAAAAGTCTTAAAAATCATGCCCGGAGGT
* *
2192729 CTTAGAGAATCATCCAAAAATCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCTAAAAGTT
64 CTTACAGAATCATCCAAAAATCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCTAAAAGTC
*
2192794 TTAAAAATCATGCTCGGAGGTC
129 TTAAAAATCATGCCCGGAGGTC
*
2192816 TTAAAAGTCATGCCCGGAGGTCTTATACAGAATCAT
1 TTAAAA-TCATGCCCAGAGGTC-T-TACAGAATCAT
2192852 GCCCGGAGGT
Statistics
Matches: 155, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
150 2 0.01
151 34 0.22
152 107 0.69
153 12 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (150 bp):
TTAAAATCATGCCCAGAGGTCTTACAGAATCATCCAAAAGTCTTAAAAATCATGCCCGGAGGTCT
TACAGAATCATCCAAAAATCTTAAAAATCATGCCCGGAGGTCTTACAGAATCATCTAAAAGTCTT
AAAAATCATGCCCGGAGGTC
Found at i:2192743 original size:43 final size:43
Alignment explanation
Indices: 2192682--2193003 Score: 371
Period size: 43 Copynumber: 7.4 Consensus size: 43
2192672 TCATACCTGA
2192682 AGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCGG
1 AGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCGG
* * *
2192725 AGGTCTTAGAGAATCATCCAAAAATCTTAAAAATCATGCCCGG
1 AGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCGG
* *
2192768 AGGTCTTACAGAATCATCTAAAAGTTTTAAAAATCATGCTCGG
1 AGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCGG
** * *
2192811 AGGTCTTA-A-AAGTCATGCCCGGAGGTCTTATACAGAATCATGCCCGG
1 AGGTCTTACAGAA-TCAT--CCAAAAGT-TT-TA-AAAATCATGCCCGG
* * ** * **
2192858 AGGTCTTATAGAATTATCTGAAAGTCTTAAAAATCATGCTTGG
1 AGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCGG
* *
2192901 AGGTCTTACAAAATCATCCAAAAAGTCTTAAAAATCATGCCCGG
1 AGGTCTTACAGAATCATCC-AAAAGTTTTAAAAATCATGCCCGG
* *
2192945 AAGTCTTACAGAATCATCCAAAAATTTTAAAAATCATGCCCGG
1 AGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCGG
*
2192988 AGGTCTTATA-AATCAT
1 AGGTCTTACAGAATCAT
2193004 GCTCGGAGGT
Statistics
Matches: 235, Mismatches: 35, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.01
42 11 0.05
43 142 0.60
44 44 0.19
45 3 0.01
46 7 0.03
47 20 0.09
48 4 0.02
49 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (43 bp):
AGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCGG
Found at i:2192826 original size:22 final size:23
Alignment explanation
Indices: 2192797--2193026 Score: 147
Period size: 22 Copynumber: 10.3 Consensus size: 23
2192787 AAAAGTTTTA
*
2192797 AAAATCATGCTCGGAGGTCTTA-
1 AAAATCATGCCCGGAGGTCTTAT
*
2192819 AAAGTCATGCCCGGAGGTCTTAT
1 AAAATCATGCCCGGAGGTCTTAT
2192842 ACAGAATCATGCCCGGAGGTCTTAT
1 A-A-AATCATGCCCGGAGGTCTTAT
* * * * *
2192867 AGAATTAT--CTGAAAGTCTTA-
1 AAAATCATGCCCGGAGGTCTTAT
** *
2192887 AAAATCATGCTTGGAGGTCTTAC
1 AAAATCATGCCCGGAGGTCTTAT
*** *
2192910 AAAATCAT-CCAAAAAGTCTTA-
1 AAAATCATGCCCGGAGGTCTTAT
* *
2192931 AAAATCATGCCCGGAAGTCTTAC
1 AAAATCATGCCCGGAGGTCTTAT
* ** ** *
2192954 AGAATCAT--CCAAAAATTTTA-
1 AAAATCATGCCCGGAGGTCTTAT
2192974 AAAATCATGCCCGGAGGTCTTAT
1 AAAATCATGCCCGGAGGTCTTAT
* *
2192997 -AAATCATGCTCGGAGGTCTTAC
1 AAAATCATGCCCGGAGGTCTTAT
*
2193019 AGAATCAT
1 AAAATCAT
2193027 AAAATCTTTG
Statistics
Matches: 161, Mismatches: 35, Indels: 23
0.74 0.16 0.11
Matches are distributed among these distances:
20 13 0.08
21 25 0.16
22 74 0.46
23 27 0.17
24 1 0.01
25 21 0.13
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (23 bp):
AAAATCATGCCCGGAGGTCTTAT
Found at i:2192976 original size:177 final size:176
Alignment explanation
Indices: 2192637--2193027 Score: 533
Period size: 177 Copynumber: 2.2 Consensus size: 176
2192627 AATTATCTGA
* * * *
2192637 AGGTCTTACAGAATTATGCCCGGAGGTCTTAGA-AG--TCATACCTGAAGGTCTTACAGAATCAT
1 AGGTCTTATA-AATCATGCCCGGAGGTCTTATACAGAATCATACCCGAAGGTCTTACAGAATCAT
* * *
2192699 CCAAAAGTTTTAAAAATCATGCCCGGAGGTCTTAGAGAATCATCCAAAAATCTTAAAAATCATGC
65 CCAAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATCATCCAAAAATCTTAAAAATCATGC
* * * *
2192764 CCGGAGGTCTTACAGAATCATCTAAAAGTTTTAAAAATCATGCTCGG
130 CCGGAAGTCTTACAGAATCATCCAAAAATTTTAAAAATCATGCCCGG
* * * *
2192811 AGGTCTTA-AAAGTCATGCCCGGAGGTCTTATACAGAATCATGCCCGGAGGTCTTATAGAATTAT
1 AGGTCTTATAAA-TCATGCCCGGAGGTCTTATACAGAATCATACCCGAAGGTCTTACAGAATCAT
** **
2192875 CTGAAAGTCTTAAAAATCATGCTTGGAGGTCTTACAAAATCATCCAAAAAGTCTTAAAAATCATG
65 CCAAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATCATCCAAAAA-TCTTAAAAATCATG
2192940 CCCGGAAGTCTTACAGAATCATCCAAAAATTTTAAAAATCATGCCCGG
129 CCCGGAAGTCTTACAGAATCATCCAAAAATTTTAAAAATCATGCCCGG
*
2192988 AGGTCTTATAAATCATGCTCGGAGGTC-T-TACAGAATCATA
1 AGGTCTTATAAATCATGCCCGGAGGTCTTATACAGAATCATA
2193028 AAATCTTTGA
Statistics
Matches: 191, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
172 2 0.01
173 19 0.10
174 10 0.05
175 11 0.06
176 66 0.35
177 80 0.42
178 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (176 bp):
AGGTCTTATAAATCATGCCCGGAGGTCTTATACAGAATCATACCCGAAGGTCTTACAGAATCATC
CAAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATCATCCAAAAATCTTAAAAATCATGCC
CGGAAGTCTTACAGAATCATCCAAAAATTTTAAAAATCATGCCCGG
Found at i:2193017 original size:109 final size:109
Alignment explanation
Indices: 2192551--2193026 Score: 419
Period size: 109 Copynumber: 4.4 Consensus size: 109
2192541 AATTACTTGA
* * ** * *
2192551 AGGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTATCTGAAGGTCTTACAAATCATGCCCGG
1 AGGTCTTAAAAATCATGCTCGGAGGTCTTACAGAATCATCCAAAAGTCTTAAAAATCATGCCCGG
* ** ** * *
2192616 AGGTCTTACAGAATTATCTGAAGGTCTTACAGAATTATGCCCGG
66 AGGTCTTACAGAATCATCCAAAAATCTTACAAAATCATGCCCGG
* * * * *
2192660 AGGTCTTAGAAGTCATAC-CTGAAGGTCTTACAGAATCATCCAAAAGTTTTAAAAATCATGCCCG
1 AGGTCTTAAAAATCATGCTC-GGAGGTCTTACAGAATCATCCAAAAGTCTTAAAAATCATGCCCG
*
2192724 GAGGTCTTAGAGAATCATCCAAAAATCTTA-AAAATCATGCCCGG
65 GAGGTCTTACAGAATCATCCAAAAATCTTACAAAATCATGCCCGG
* ** * * * ** * *
2192768 AGGTCTTACAGAATCAT-CT-AAAAGTTTTA-AAAATCATGCTCGGAGGTCTTAAAAGTCATGCC
1 AGGTCTTA-AAAATCATGCTCGGAGGTCTTACAGAATCAT-C-CAAAAGTCTTAAAAATCATGCC
** ** * * * * *
2192830 CGGAGGTCTTATACAGAATCATGCCCGGAGGTCTTATAGAATTAT--CTGA
63 CGGAGGTC-T-TACAGAATCAT--CCAAAAATCTTACAAAATCATGCCCGG
* * *
2192879 AAGTCTTAAAAATCATGCTTGGAGGTCTTACAAAATCATCCAAAAAGTCTTAAAAATCATGCCCG
1 AGGTCTTAAAAATCATGCTCGGAGGTCTTACAGAATCATCC-AAAAGTCTTAAAAATCATGCCCG
* *
2192944 GAAGTCTTACAGAATCATCCAAAAATTTTA-AAAATCATGCCCGG
65 GAGGTCTTACAGAATCATCCAAAAATCTTACAAAATCATGCCCGG
*
2192988 AGGTCTTATAAATCATGCTCGGAGGTCTTACAGAATCAT
1 AGGTCTTAAAAATCATGCTCGGAGGTCTTACAGAATCAT
2193027 AAAATCTTTG
Statistics
Matches: 288, Mismatches: 63, Indels: 32
0.75 0.16 0.08
Matches are distributed among these distances:
106 7 0.02
107 14 0.05
108 54 0.19
109 119 0.41
110 28 0.10
111 13 0.05
112 39 0.14
113 14 0.05
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (109 bp):
AGGTCTTAAAAATCATGCTCGGAGGTCTTACAGAATCATCCAAAAGTCTTAAAAATCATGCCCGG
AGGTCTTACAGAATCATCCAAAAATCTTACAAAATCATGCCCGG
Found at i:2194983 original size:9 final size:9
Alignment explanation
Indices: 2194955--2195019 Score: 87
Period size: 9 Copynumber: 7.0 Consensus size: 9
2194945 AATATGTCCA
2194955 TTTTATTTT
1 TTTTATTTT
2194964 TTTCT-TCTTT
1 TTT-TAT-TTT
2194974 TTTTATTTT
1 TTTTATTTT
2194983 TATTTATTTT
1 T-TTTATTTT
2194993 TTTTATTTT
1 TTTTATTTT
2195002 TTTTATTTT
1 TTTTATTTT
*
2195011 TTTTCTTTT
1 TTTTATTTT
2195020 CATTTTTTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
9 34 0.67
10 17 0.33
ACGTcount: A:0.09, C:0.05, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTATTTT
Found at i:2195014 original size:18 final size:18
Alignment explanation
Indices: 2194955--2195019 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 18
2194945 AATATGTCCA
2194955 TTTTATTTTTTTCT-TCTTT
1 TTTTATTTTTTT-TAT-TTT
2194974 TTTTATTTTTATTTATTTT
1 TTTTATTTTT-TTTATTTT
2194993 TTTTATTTTTTTTATTTT
1 TTTTATTTTTTTTATTTT
*
2195011 TTTTCTTTT
1 TTTTATTTT
2195020 CATTTTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
18 16 0.37
19 24 0.56
20 3 0.07
ACGTcount: A:0.09, C:0.05, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTATTTTTTTTATTTT
Found at i:2195027 original size:15 final size:16
Alignment explanation
Indices: 2194991--2195029 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2194981 TTTATTTATT
* *
2194991 TTTTTTATTTTTTTTA
1 TTTTTTATTCTTTTCA
2195007 TTTTTT-TTCTTTTCA
1 TTTTTTATTCTTTTCA
2195022 TTTTTTAT
1 TTTTTTAT
2195030 GCCCCATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTATTCTTTTCA
Found at i:2195597 original size:11 final size:11
Alignment explanation
Indices: 2195580--2195609 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
2195570 CAGAATAAAA
2195580 CTTTTTTTTC-
1 CTTTTTTTTCT
2195590 CTTTTTTTTCT
1 CTTTTTTTTCT
2195601 CTTTTTTTT
1 CTTTTTTTT
2195610 TAAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:2201224 original size:16 final size:16
Alignment explanation
Indices: 2201200--2201234 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2201190 CTTAGGATTT
*
2201200 TTTTTAGGACTTTGGA
1 TTTTAAGGACTTTGGA
*
2201216 TTTTAAGGATTTTGGA
1 TTTTAAGGACTTTGGA
2201232 TTT
1 TTT
2201235 CGGGGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54
Consensus pattern (16 bp):
TTTTAAGGACTTTGGA
Found at i:2201895 original size:30 final size:30
Alignment explanation
Indices: 2201843--2201926 Score: 150
Period size: 30 Copynumber: 2.8 Consensus size: 30
2201833 ATGAAAGAAG
*
2201843 CGGGTCGCGGGTCTGGCGCGCGGACTCGGGT
1 CGGGTCGCGGGT-TGACGCGCGGACTCGGGT
2201874 CGGGTCGCGGGTTGACGCGCGGACTCGGGT
1 CGGGTCGCGGGTTGACGCGCGGACTCGGGT
2201904 CGGGTCGCGGGTTGACGCGCGGA
1 CGGGTCGCGGGTTGACGCGCGGA
2201927 TATTCGGGCT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 40 0.77
31 12 0.23
ACGTcount: A:0.06, C:0.27, G:0.51, T:0.15
Consensus pattern (30 bp):
CGGGTCGCGGGTTGACGCGCGGACTCGGGT
Found at i:2202539 original size:32 final size:30
Alignment explanation
Indices: 2202484--2202554 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 30
2202474 GGGTGGATCG
* *
2202484 AAATTTTTCGTTCCTGAACTCTCAAGCTGGAA
1 AAATTTTTTGTTCCAGAACTCTC-A-CTGGAA
* * *
2202516 AAATTTTTTGTTTCAGAATTCTCACTTGAA
1 AAATTTTTTGTTCCAGAACTCTCACTGGAA
2202546 AAATTTTTT
1 AAATTTTTT
2202555 CATTTTTCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 14 0.41
31 1 0.03
32 19 0.56
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (30 bp):
AAATTTTTTGTTCCAGAACTCTCACTGGAA
Found at i:2202819 original size:5 final size:5
Alignment explanation
Indices: 2202798--2202845 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
2202788 CTGATTTCCA
2202798 TTTTG -TTT- TTTTG -TTTG TTTTG TTTT- TTCTT- TTTTG TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TT-TTG TTTTG TTTTG TTTTG
2202844 TT
1 TT
2202846 AAATATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 14 0.37
5 24 0.63
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:2202833 original size:19 final size:18
Alignment explanation
Indices: 2202798--2202842 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
2202788 CTGATTTCCA
2202798 TTTTG-TTTTTTTGTTTG
1 TTTTGTTTTTTTTGTTTG
*
2202815 TTTTGTTTTTTCTTTTTTG
1 TTTTGTTTTTT-TTGTTTG
2202834 TTTTGTTTT
1 TTTTGTTTT
2202843 GTTAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.20
18 5 0.20
19 15 0.60
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.84
Consensus pattern (18 bp):
TTTTGTTTTTTTTGTTTG
Found at i:2203534 original size:108 final size:108
Alignment explanation
Indices: 2203319--2203673 Score: 487
Period size: 109 Copynumber: 3.3 Consensus size: 108
2203309 TTATGGTTAC
* * * * * *
2203319 TTTTATTTCCTTGACTTGCGATTCAGTCCCGATCGTCGTTAATATTTGACTTGTGATTTAATCTC
1 TTTTATTTCTTTGACTTACGGTTCAGTCCCGGTCGTCGTTAATCTTTGACTTGTG-GTTAATCTC
*
2203384 GATCATTCTTAAAGCTTCTTGACTTACGATTTAATCCTAGTCAT
65 GATCATTCTTATAGCTTCTTGACTTACGATTTAATCCTAGTCAT
* * * *
2203428 TTTTATTTTTTTGACTTACGGTTCAGTCCCGGTCATCGTTAATCTTTGACTCGTGGTTAATCCCG
1 TTTTATTTCTTTGACTTACGGTTCAGTCCCGGTCGTCGTTAATCTTTGACTTGTGGTTAATCTCG
* * * * *
2203493 ATCATTCTTATAGCTTCTCGACCTATGATTTAATCATAGTCAC
66 ATCATTCTTATAGCTTCTTGACTTACGATTTAATCCTAGTCAT
* * *
2203536 TTTTATTTCTTTGACTTGA-TGTTCAGTCCCGGTCGTCGTTAGTCTTTAACTTGTGGTTTAATCT
1 TTTTATTTCTTTGACTT-ACGGTTCAGTCCCGGTCGTCGTTAATCTTTGACTTGTGG-TTAATCT
*
2203600 CGATCATTCTTATAGCTTTTTGACTTACGATTTAATCCTAGTCAT
64 CGATCATTCTTATAGCTTCTTGACTTACGATTTAATCCTAGTCAT
*
2203645 TTTTATTTCTCTGACTTACGGTTCAGTCC
1 TTTTATTTCTTTGACTTACGGTTCAGTCC
2203674 TGATCATTTT
Statistics
Matches: 212, Mismatches: 31, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
108 94 0.44
109 118 0.56
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.45
Consensus pattern (108 bp):
TTTTATTTCTTTGACTTACGGTTCAGTCCCGGTCGTCGTTAATCTTTGACTTGTGGTTAATCTCG
ATCATTCTTATAGCTTCTTGACTTACGATTTAATCCTAGTCAT
Found at i:2203887 original size:45 final size:47
Alignment explanation
Indices: 2203805--2203897 Score: 154
Period size: 45 Copynumber: 2.0 Consensus size: 47
2203795 AAATCGTAGT
*
2203805 TTAATCTCAATTGTTGTCTTTATTTTTGACTCGTGGTTTAATCTCGG
1 TTAATCTCAATTGTTGTCTATATTTTTGACTCGTGGTTTAATCTCGG
*
2203852 TTAATCTCGATTGTTGT-TAT-TTTTTGACTCGTGGTTTAATCTCGG
1 TTAATCTCAATTGTTGTCTATATTTTTGACTCGTGGTTTAATCTCGG
2203897 T
1 T
2203898 CTCTTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 26 0.59
46 2 0.05
47 16 0.36
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (47 bp):
TTAATCTCAATTGTTGTCTATATTTTTGACTCGTGGTTTAATCTCGG
Found at i:2204029 original size:134 final size:135
Alignment explanation
Indices: 2203850--2204160 Score: 455
Period size: 134 Copynumber: 2.3 Consensus size: 135
2203840 GTTTAATCTC
*
2203850 GGTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATCTCGGTCTCTTTATTTTCTGACT
1 GGTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACT
* *
2203915 TATGATTCAATCCAAATTGACGTTATTCTAACTCGTGGTTCAATCTCAATTT-TTTAATCCAAAA
66 TATGATTCAATCCAAATTGACGCTATTCTAACTCGTGGTTCAATCCCAATTTCTTTAATCCAAAA
2203979 TCGTA
131 TCGTA
* * * *
2203984 GGTTAATCTCAATTGTTGCTATTTTCTGACTTGTGGTTTAATCTCGGTCTCTTTATTTTATGACT
1 GGTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACT
* * * * * * *
2204049 TGTGATTCAATCTAAGTTGATGCTATTCTGACTCGTGGTTTAATCCCGATTTCTTTAATCCAAAA
66 TATGATTCAATCCAAATTGACGCTATTCTAACTCGTGGTTCAATCCCAATTTCTTTAATCCAAAA
*
2204114 TTGTA
131 TCGTA
* *
2204119 -GTTAATCTCGATTGTTGTTATTTTTTTACTCGTGATTTAATC
1 GGTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATC
2204161 CCGATTAATC
Statistics
Matches: 155, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
134 139 0.90
135 16 0.10
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (135 bp):
GGTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACT
TATGATTCAATCCAAATTGACGCTATTCTAACTCGTGGTTCAATCCCAATTTCTTTAATCCAAAA
TCGTA
Found at i:2204078 original size:67 final size:66
Alignment explanation
Indices: 2203876--2204093 Score: 190
Period size: 67 Copynumber: 3.3 Consensus size: 66
2203866 TGTTATTTTT
* * * * *
2203876 TGACTCGTGGTTTAATCTCGGTCTCTTTATTTTCTGACTTATGATTCAATCCAAATTGACGTTAT
1 TGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACTTGTGATTCAAT-CTAATTGATGCTAT
2203941 TC
65 TC
* * ** * * ** * * * * *
2203943 TAACTCGTGGTTCAATCTCAAT-TTTTTAATCCA-AAATCGTAGGTT-AATCTCAATTGTTGCTA
1 TGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACTTGT-GATTCAATCT-AATTGATGCTA
2204005 TTTTC
64 --TTC
*
2204010 TGACTTGTGGTTTAATCTCGGTCTCTTTATTTTATGACTTGTGATTCAATCTAAGTTGATGCTAT
1 TGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACTTGTGATTCAATCTAA-TTGATGCTAT
2204075 TC
65 TC
2204077 TGACTCGTGGTTTAATC
1 TGACTCGTGGTTTAATC
2204094 CCGATTTCTT
Statistics
Matches: 110, Mismatches: 33, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
64 1 0.01
65 14 0.13
66 9 0.08
67 57 0.52
68 12 0.11
69 17 0.15
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.45
Consensus pattern (66 bp):
TGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACTTGTGATTCAATCTAATTGATGCTATT
C
Found at i:2204184 original size:45 final size:45
Alignment explanation
Indices: 2204120--2204205 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
2204110 AAAATTGTAG
* *
2204120 TTAATCTCGATTGTTGTTATTTTTTTA-CTCGTGATTTAATCCCGA
1 TTAATCTCGATTATTGTTA-TTTTCTAGCTCGTGATTTAATCCCGA
*
2204165 TTAATCTTGATTATTGTTATTTTCTAGCTCGTGATTTAATC
1 TTAATCTCGATTATTGTTATTTTCTAGCTCGTGATTTAATC
2204206 TCGGTCTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 6 0.16
45 31 0.84
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (45 bp):
TTAATCTCGATTATTGTTATTTTCTAGCTCGTGATTTAATCCCGA
Found at i:2204358 original size:45 final size:46
Alignment explanation
Indices: 2204291--2204385 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 46
2204281 TTTAATCCAA
* *
2204291 AATCACAGTTTAATCTCAATTGTTGTTATTTTTTGACTCGTGGTTT
1 AATCACAGGTTAATCTCAATTGTTGTTATTTTTTGACTCATGGTTT
*
2204337 AATCAC-GGTTAATCTCGATTGTTGTTATTTTTTGACTCATGGTTT
1 AATCACAGGTTAATCTCAATTGTTGTTATTTTTTGACTCATGGTTT
2204382 AATC
1 AATC
2204386 TTGGTCTCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 40 0.87
46 6 0.13
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (46 bp):
AATCACAGGTTAATCTCAATTGTTGTTATTTTTTGACTCATGGTTT
Found at i:2204400 original size:180 final size:180
Alignment explanation
Indices: 2203984--2204520 Score: 754
Period size: 180 Copynumber: 3.0 Consensus size: 180
2203974 CAAAATCGTA
* * *
2203984 GGTTAATCTCAATTGTTGCTATTTTCTGACTTGTGGTTTAATCTCGGTCTCTTTATTTTATGACT
1 GGTTAATCTCGATTGTTGTTATTTTCTGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACT
* * * * *
2204049 TGTGATTCAATCTAAGTTGATGCTATTCTGACTCGTGGTTTAATCCCGATTTCTTTAATCCAAAA
66 TGTGATTCAATCCAAGTTGACGTTATTCTGACTCGTGGTTCAATCTCGATTTCTTTAATCCAAAA
* * * *
2204114 TTGTAG-TTAATCTCGATTGTTGTTATTTTTTTACTCGTGATTTAATCCC
131 TCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATCAC
* * * * *
2204163 GATTAATCTTGATTATTGTTATTTTCT-AGCTCGTGATTTAATCTCGGTCTCTTTATTTTTTGAC
1 GGTTAATCTCGATTGTTGTTATTTTCTGA-CTCGTGGTTTAATCTCGGTCTCTTTATTTTATGAC
* * *
2204227 TTGTGATTCAATCCAAGTTGACATTATTCTGACTCGTGATTCAATCTTGATTTCTTTAATCCAAA
65 TTGTGATTCAATCCAAGTTGACGTTATTCTGACTCGTGGTTCAATCTCGATTTCTTTAATCCAAA
** *
2204292 ATCACAGTTTAATCTCAATTGTTGTTATTTTTTGACTCGTGGTTTAATCAC
130 ATCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATCAC
* * * *
2204343 GGTTAATCTCGATTGTTGTTATTTTTTGACTCATGGTTTAATCTTGGTCTCTTTATTTTCTGACT
1 GGTTAATCTCGATTGTTGTTATTTTCTGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACT
* * *
2204408 TATGATTCAATCCAAGTTGACGTTATTCTAACTCGCGGTTCAATCTCGATTTCTTTAATCCAAAA
66 TGTGATTCAATCCAAGTTGACGTTATTCTGACTCGTGGTTCAATCTCGATTTCTTTAATCCAAAA
* * *
2204473 TCGTAGTTTAATCTCGATTATTATTTTTTTTTGACTCGTGGTTTAATC
131 TCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATC
2204521 TCGATCTCTT
Statistics
Matches: 312, Mismatches: 43, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
178 1 0.00
179 115 0.37
180 195 0.62
181 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (180 bp):
GGTTAATCTCGATTGTTGTTATTTTCTGACTCGTGGTTTAATCTCGGTCTCTTTATTTTATGACT
TGTGATTCAATCCAAGTTGACGTTATTCTGACTCGTGGTTCAATCTCGATTTCTTTAATCCAAAA
TCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTCGTGGTTTAATCAC
Found at i:2205951 original size:16 final size:18
Alignment explanation
Indices: 2205932--2205977 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
2205922 AATTTTCTAA
2205932 TTTTTTTATATATT-A-T
1 TTTTTTTATATATTAAGT
2205948 TTTTTTTAT-T-TTAAGT
1 TTTTTTTATATATTAAGT
*
2205964 ATTTTTTATATATT
1 TTTTTTTATATATT
2205978 TATGCATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.08
15 2 0.08
16 18 0.72
17 1 0.04
18 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTTATATATTAAGT
Found at i:2206097 original size:3 final size:3
Alignment explanation
Indices: 2206089--2206124 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2206079 TAAAAATGCT
2206089 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2206125 TATTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2208419 original size:9 final size:9
Alignment explanation
Indices: 2208405--2208442 Score: 53
Period size: 8 Copynumber: 4.4 Consensus size: 9
2208395 AATTCTATTT
2208405 TATTTTTTA
1 TATTTTTTA
2208414 TA-TTTTTA
1 TATTTTTTA
*
2208422 TTTTTTTTA
1 TATTTTTTA
2208431 T-TTTTTTA
1 TATTTTTTA
2208439 TATT
1 TATT
2208443 AAAAATTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 15 0.58
9 11 0.42
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TATTTTTTA
Found at i:2208422 original size:15 final size:15
Alignment explanation
Indices: 2208402--2208435 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2208392 TCAAATTCTA
2208402 TTTTATTTTTTATAT
1 TTTTATTTTTTATAT
*
2208417 TTTTATTTTTTTTAT
1 TTTTATTTTTTATAT
2208432 TTTT
1 TTTT
2208436 TTATATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTATTTTTTATAT
Found at i:2208429 original size:17 final size:17
Alignment explanation
Indices: 2208407--2208439 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2208397 TTCTATTTTA
2208407 TTTTTTATATTTTTATT
1 TTTTTTATATTTTTATT
*
2208424 TTTTTTATTTTTTTAT
1 TTTTTTATATTTTTAT
2208440 ATTAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTATATTTTTATT
Found at i:2208482 original size:26 final size:28
Alignment explanation
Indices: 2208434--2208488 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
2208424 TTTTTTATTT
*
2208434 TTTTATATTAAAAATTATGAAATTTTAA
1 TTTTATATAAAAAATTATGAAATTTTAA
*
2208462 TTTTATA-AAAAAATT-TTAAATTTTAA
1 TTTTATATAAAAAATTATGAAATTTTAA
2208488 T
1 T
2208489 ATTAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 7 0.28
28 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TTTTATATAAAAAATTATGAAATTTTAA
Found at i:2210663 original size:29 final size:26
Alignment explanation
Indices: 2210604--2210655 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2210594 ACCTTGAATT
*
2210604 AATTTTTGACAACCTTATTATTGTTC
1 AATTTTTAACAACCTTATTATTGTTC
*
2210630 AATTTTTAATAACCTTATTATTGTTC
1 AATTTTTAACAACCTTATTATTGTTC
2210656 TTTCATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (26 bp):
AATTTTTAACAACCTTATTATTGTTC
Found at i:2211984 original size:23 final size:24
Alignment explanation
Indices: 2211958--2212009 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
2211948 ATTGTAAAAA
* *
2211958 TATATTTATT-TAACATTGGATTC
1 TATATCTATTATAAAATTGGATTC
*
2211981 TATATCTGTTAATAAAATTGGATTC
1 TATATCTATT-ATAAAATTGGATTC
2212006 TATA
1 TATA
2212010 ATTTGGCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.33
25 16 0.67
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (24 bp):
TATATCTATTATAAAATTGGATTC
Found at i:2213341 original size:5 final size:5
Alignment explanation
Indices: 2213331--2213355 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2213321 TGAGCGGGAT
2213331 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
2213356 AATTTGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:2213374 original size:212 final size:213
Alignment explanation
Indices: 2213117--2213536 Score: 806
Period size: 212 Copynumber: 2.0 Consensus size: 213
2213107 TAATTAAAAA
2213117 TTAAATTAAATTAAATTAAAAATTAAAAATTTGATTGATTATAATAAAATATTAAAAATTTTAAA
1 TTAAATTAAATTAAATT-AAAATTAAAAATTTGATTGATTATAATAAAATATTAAAAATTTTAAA
2213182 TAATTATTAAATTATAATTCAAAACATCTGTTATCTTTAGCCTTTTAATCCCTACACTTGATTAA
65 TAATTATTAAATTATAATTCAAAACATCTGTTATCTTTAGCCTTTTAATCCCTACACTTGATTAA
*
2213247 TTTTTCATTTTTGCTGTGTCTAATCTTTAAATCAAACCTTTTTTCTTTTATGTTTTTCCTATCAC
130 TTTTTCATTTTTGCTGTGTCGAATCTTTAAATCAAACCTTTTTTCTTTTATGTTTTTCCTATCAC
2213312 TTCAATAGGTGAGCGGGAT
195 TTCAATAGGTGAGCGGGAT
2213331 TTAAATTAAATTAAATT-AAATTAAAAATTTGATTGATTATAATAAAATATTAAAAATTTTAAAT
1 TTAAATTAAATTAAATTAAAATTAAAAATTTGATTGATTATAATAAAATATTAAAAATTTTAAAT
*
2213395 AATTATTAAATTATAATTCAAAACATCTGTTATCTTTAGCCTTTTAATCGCTACACTTGATTAAT
66 AATTATTAAATTATAATTCAAAACATCTGTTATCTTTAGCCTTTTAATCCCTACACTTGATTAAT
2213460 TTTTCATTTTTGCTGTGTCGAATCTTTAAATCAAACCTTTTTTCTTTTATGTTTTTCCTATCACT
131 TTTTCATTTTTGCTGTGTCGAATCTTTAAATCAAACCTTTTTTCTTTTATGTTTTTCCTATCACT
2213525 TCAATAGGTGAG
196 TCAATAGGTGAG
2213537 TGGTCTAAAT
Statistics
Matches: 204, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
212 187 0.92
214 17 0.08
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (213 bp):
TTAAATTAAATTAAATTAAAATTAAAAATTTGATTGATTATAATAAAATATTAAAAATTTTAAAT
AATTATTAAATTATAATTCAAAACATCTGTTATCTTTAGCCTTTTAATCCCTACACTTGATTAAT
TTTTCATTTTTGCTGTGTCGAATCTTTAAATCAAACCTTTTTTCTTTTATGTTTTTCCTATCACT
TCAATAGGTGAGCGGGAT
Found at i:2216142 original size:64 final size:64
Alignment explanation
Indices: 2216029--2216186 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 64
2216019 AAATTAAAAA
*
2216029 TTATTACAAAAAATGTCTTAAATAAT-ATCTTTTAAAAAATTGAAGAATATTATTGAAAG-CATT
1 TTATTA-AAAAAAAGTCTTAAATAATCAT-TTTTAAAAAATTGAAGAATATT-TTGAAAGACATT
2216092 TT
63 TT
* * *
2216094 TTATTAAAAAAAAGTCTTAAATAATCATTTTTAAAAAAATAT-TA-AATATTTTTAAAGATATTT
1 TTATTAAAAAAAAGTCTTAAATAATCATTTTT-AAAAAAT-TGAAGAATATTTTGAAAGACATTT
2216157 T
64 T
* * *
2216158 TTAATAAAAAATA-CCTTAAATAATCATTT
1 TTATTAAAAAAAAGTCTTAAATAATCATTT
2216187 CATATTTTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
63 21 0.26
64 44 0.54
65 16 0.20
66 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (64 bp):
TTATTAAAAAAAAGTCTTAAATAATCATTTTTAAAAAATTGAAGAATATTTTGAAAGACATTTT
Found at i:2216515 original size:18 final size:18
Alignment explanation
Indices: 2216492--2216527 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2216482 ATTTTTCATC
2216492 AATCAAATGAATAAATCT
1 AATCAAATGAATAAATCT
2216510 AATCAAATGAATAAATCT
1 AATCAAATGAATAAATCT
2216528 GAATAACGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (18 bp):
AATCAAATGAATAAATCT
Found at i:2216837 original size:22 final size:21
Alignment explanation
Indices: 2216789--2216837 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2216779 TTCATTTTTT
*
2216789 TATTTTCTTTCTATTTATAAT
1 TATTTTCTTTCTATTTATAAA
* * *
2216810 TTTTTTGTTTTTATTTCATAAA
1 TATTTTCTTTCTATTT-ATAAA
2216832 TATTTT
1 TATTTT
2216838 TAAATATCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTTCTTTCTATTTATAAA
Found at i:2217363 original size:6 final size:6
Alignment explanation
Indices: 2217352--2217394 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
2217342 TATAATAGAT
* * *
2217352 AAAAGA AAAAGA AAAAAA ATAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA
2217395 TATGATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:2218827 original size:28 final size:28
Alignment explanation
Indices: 2218774--2218827 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
2218764 TTTAAATCAA
* * *
2218774 ATTAATTGAATTATATTATTTTATTTTT
1 ATTAATCGAATTAAATTATTTAATTTTT
2218802 ATTAATCGAATTAAATT-TATTAATTT
1 ATTAATCGAATTAAATTAT-TTAATTT
2218828 CGAAATTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 1 0.05
28 21 0.95
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (28 bp):
ATTAATCGAATTAAATTATTTAATTTTT
Found at i:2218977 original size:13 final size:14
Alignment explanation
Indices: 2218945--2218977 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
2218935 TTGAAACCAA
2218945 TTAAATAAAATCAT
1 TTAAATAAAATCAT
2218959 TT-AATAAAAT-AT
1 TTAAATAAAATCAT
2218971 TTAAATA
1 TTAAATA
2218978 TCAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 12 0.67
14 2 0.11
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
TTAAATAAAATCAT
Found at i:2220204 original size:22 final size:22
Alignment explanation
Indices: 2220176--2220219 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2220166 ATTTTTTTTC
*
2220176 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
2220198 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
2220220 TAAATATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGGGATACAAATA
Found at i:2225585 original size:27 final size:27
Alignment explanation
Indices: 2225528--2225585 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
2225518 GGTTGGGTAG
*
2225528 GTTGAGAATCTAGTTTTAAAGGGACTG
1 GTTGAGAATCTAGTTTTAAAGGGACTA
* * *
2225555 GTTGAGAATCTGGTTTTGAAGGGGCTA
1 GTTGAGAATCTAGTTTTAAAGGGACTA
2225582 GTTG
1 GTTG
2225586 GGAAATTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.07, G:0.34, T:0.34
Consensus pattern (27 bp):
GTTGAGAATCTAGTTTTAAAGGGACTA
Found at i:2232199 original size:17 final size:17
Alignment explanation
Indices: 2232177--2232212 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2232167 GTTTCTGCAA
2232177 AGGAACTATCAGTTGAG
1 AGGAACTATCAGTTGAG
2232194 AGGAACTATCAGTTGAG
1 AGGAACTATCAGTTGAG
2232211 AG
1 AG
2232213 TGTTACCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (17 bp):
AGGAACTATCAGTTGAG
Found at i:2240310 original size:14 final size:14
Alignment explanation
Indices: 2240273--2240310 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
2240263 CAAATTTAAA
2240273 AATAAAAATAAATT
1 AATAAAAATAAATT
2240287 AAGTAAAAAT-AATT
1 AA-TAAAAATAAATT
2240301 AATAATAAAT
1 AATAA-AAAT
2240311 CGCATATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 12 0.55
15 7 0.32
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AATAAAAATAAATT
Found at i:2243081 original size:124 final size:123
Alignment explanation
Indices: 2242927--2243167 Score: 283
Period size: 124 Copynumber: 2.0 Consensus size: 123
2242917 CCAAACATTG
* * * * * * *
2242927 AATACTCTTTTACAAAAAATTGAATGGGGTTATCCAAGAG-A-TTTTTAGTCAAAAAAGTCTTGA
1 AATAATCTCTTACAAAAAATTAAATAGGGTTATCCAAG-GTATTTTTTA-ACAAAAAAGCCTTAA
2242990 ATAATCT-TCTCTAATTTTTATAAAGTTATTATTCAAAGCG-TTTTGGCCAAAAAATGCGTTA
64 ATAATCTGT-TCTAATTTTTATAAAG--ATTATTCAAAGCGTTTTTGGCCAAAAAATGCGTTA
* *
2243051 AATAATCTCTTACAAAAAATTAAATAGGGTTATTCAAGGTATTTTTTAACAAAAATGCCTTAAAT
1 AATAATCTCTTACAAAAAATTAAATAGGGTTATCCAAGGTATTTTTTAACAAAAAAGCCTTAAAT
* * * * *
2243116 AATCTGTTTTAATTTTTTTAAAGATTATTCAAGGTGTTTTTGGTCAAAAAAT
66 AATCTGTTCTAATTTTTATAAAGATTATTCAAAGCGTTTTTGGCCAAAAAAT
2243168 ATCTTAAATA
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
122 11 0.11
123 15 0.15
124 66 0.67
125 7 0.07
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.39
Consensus pattern (123 bp):
AATAATCTCTTACAAAAAATTAAATAGGGTTATCCAAGGTATTTTTTAACAAAAAAGCCTTAAAT
AATCTGTTCTAATTTTTATAAAGATTATTCAAAGCGTTTTTGGCCAAAAAATGCGTTA
Found at i:2244670 original size:17 final size:19
Alignment explanation
Indices: 2244650--2244686 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
2244640 AACCAGCCAG
*
2244650 AAAACCAAAA-AAAA-AAA
1 AAAAACAAAACAAAACAAA
2244667 AAAAACAAAACAAAACAAA
1 AAAAACAAAACAAAACAAA
2244686 A
1 A
2244687 CAAAGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAACAAAACAAAACAAA
Found at i:2244687 original size:5 final size:5
Alignment explanation
Indices: 2244650--2244690 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
2244640 AACCAGCCAG
2244650 AAAACC AAAA- AAAA- AAAA- AAAAC AAAAC AAAAC AAAAC AAA
1 AAAA-C AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA
2244691 GGAAAATAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 12 0.35
5 18 0.53
6 4 0.12
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:2244696 original size:15 final size:15
Alignment explanation
Indices: 2244650--2244690 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
2244640 AACCAGCCAG
*
2244650 AAAACCAAA-AAAAA
1 AAAACAAAACAAAAA
*
2244664 AAAA-AAAACAAAAC
1 AAAACAAAACAAAAA
2244678 AAAACAAAACAAA
1 AAAACAAAACAAA
2244691 GGAAAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 12 0.52
15 8 0.35
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAACAAAACAAAAA
Found at i:2257516 original size:21 final size:22
Alignment explanation
Indices: 2257482--2257522 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2257472 GATTATTTAT
*
2257482 TTTTTATATATTTATTTATCTC
1 TTTTTATATATTTAATTATCTC
*
2257504 TTTTTAT-TTTTTAATTATC
1 TTTTTATATATTTAATTATC
2257523 ATATAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTATATATTTAATTATCTC
Found at i:2265697 original size:133 final size:129
Alignment explanation
Indices: 2265458--2265705 Score: 311
Period size: 133 Copynumber: 1.9 Consensus size: 129
2265448 AATTATATTT
*
2265458 ATAAAATTATTACAAAGACGTAATATAGATGTAAACAAACACATAAATTTTATTGTGAGTCTTCA
1 ATAAAATTATTACAAAGACGTAATATAGATGTAAACAAACACAAAAATTTTATTGTGAGTCTTCA
* ** ** *
2265523 ACCGTATTGCACACCAAGAGCAAATGAGACACAAAAACAAAAAAACAAAAGGGAAAACAACATG
66 ACCGGAAAGCACACCAAGAGCAAACCAGACACAAAAACAAAAAAAAAAAAGGGAAAACAACATG
* *
2265587 ATAAAATTATTACAATGACGTAATAT-GATTTAAACAAACACACGGGAAAATTTTATTGTTGAGT
1 ATAAAATTATTACAAAGACGTAATATAGATGTAAACAAACACA----AAAATTTTATTG-TGAGT
* * * *
2265651 GTTCAACCGGACAAG-ACACCAAGAGCAAACCAGCCAGAAAACCAAAAAAAAAAAA
61 CTTCAACCGGA-AAGCACACCAAGAGCAAACCAGACACAAAAACAAAAAAAAAAAA
2265706 AAAAAAACAA
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
128 15 0.15
129 25 0.25
132 11 0.11
133 48 0.48
134 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (129 bp):
ATAAAATTATTACAAAGACGTAATATAGATGTAAACAAACACAAAAATTTTATTGTGAGTCTTCA
ACCGGAAAGCACACCAAGAGCAAACCAGACACAAAAACAAAAAAAAAAAAGGGAAAACAACATG
Found at i:2265723 original size:10 final size:10
Alignment explanation
Indices: 2265688--2265726 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
2265678 AACCAGCCAG
*
2265688 AAAACCAAAA
1 AAAAACAAAA
*
2265698 AAAAAAAAAA
1 AAAAACAAAA
2265708 AAAAACAAAA
1 AAAAACAAAA
*
2265718 CAAAACAAA
1 AAAAACAAA
2265727 GGAAAATAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:2271901 original size:20 final size:21
Alignment explanation
Indices: 2271860--2271904 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2271850 TGGGTGATAG
* *
2271860 AGAAATTGACTGAAACAAAAA
1 AGAAATAGAATGAAACAAAAA
2271881 AGAAATAGAATGAAA-AAAAA
1 AGAAATAGAATGAAACAAAAA
2271901 AGAA
1 AGAA
2271905 GCAAGCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.69, C:0.04, G:0.16, T:0.11
Consensus pattern (21 bp):
AGAAATAGAATGAAACAAAAA
Found at i:2272517 original size:12 final size:12
Alignment explanation
Indices: 2272495--2272553 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
2272485 CTCATCCAAA
2272495 ATTTTTTTA-TT
1 ATTTTTTTATTT
2272506 ATTTTGTTTATTT
1 ATTTT-TTTATTT
2272519 ATTTATTTT-TTT
1 ATTT-TTTTATTT
*
2272531 ATATTTTTATTT
1 ATTTTTTTATTT
*
2272543 AATTATTTTAT
1 -ATTTTTTTAT
2272554 ATAATTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 9 0.22
12 13 0.32
13 17 0.43
14 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:2272521 original size:16 final size:15
Alignment explanation
Indices: 2272496--2272542 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
2272486 TCATCCAAAA
2272496 TTTT-TTTATTATTT
1 TTTTATTTATTATTT
2272510 TGTTTATTTATTTATTT
1 T-TTTATTTA-TTATTT
*
2272527 TTTTATATTTTTATTT
1 TTTTAT-TTATTATTT
2272543 AATTATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 3 0.11
16 15 0.54
17 9 0.32
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (15 bp):
TTTTATTTATTATTT
Found at i:2272538 original size:28 final size:28
Alignment explanation
Indices: 2272495--2272550 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2272485 CTCATCCAAA
* *
2272495 ATTTTTTTATTATTTTGTTTATTTATTT
1 ATTTTTTTATTATTTTATTTAATTATTT
2272523 ATTTTTTTA-TATTTTTATTTAATTATTT
1 ATTTTTTTATTA-TTTTATTTAATTATTT
2272551 TATATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (28 bp):
ATTTTTTTATTATTTTATTTAATTATTT
Found at i:2272560 original size:24 final size:24
Alignment explanation
Indices: 2272494--2272562 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
2272484 TCTCATCCAA
*
2272494 AATT-TTTTTATTATTTTGTTTATTT
1 AATTATTTTTA-TATATT-TTTATTT
* *
2272519 ATTTATTTTTTTATATTTTTATTT
1 AATTATTTTTATATATTTTTATTT
*
2272543 AATTA-TTTTATATAATTTTA
1 AATTATTTTTATATATTTTTA
2272563 GCTAGAGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 13 0.35
24 11 0.30
25 8 0.22
26 5 0.14
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (24 bp):
AATTATTTTTATATATTTTTATTT
Found at i:2274795 original size:41 final size:41
Alignment explanation
Indices: 2274719--2274798 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
2274709 TTGATGAATT
* * *
2274719 TTTTTAAAGTTTCATAGCTTCTAGTGAGAGAAGTTTTTTAA
1 TTTTTAAAGTTTCAAAGCTTATAGTGAAAGAAGTTTTTTAA
* *
2274760 TTTTTAAAGTTTCAAAGCTTATGGTTATAAG-AGTTTTTT
1 TTTTTAAAGTTTCAAAGCTTATAGTGA-AAGAAGTTTTTT
2274799 GGTTGCGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (41 bp):
TTTTTAAAGTTTCAAAGCTTATAGTGAAAGAAGTTTTTTAA
Found at i:2274895 original size:38 final size:37
Alignment explanation
Indices: 2274849--2274930 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
2274839 ACTCTTTCAT
** * *
2274849 TTTTAAAGTCTCCATTTAGAGGAGTTTTTTG-TTATGAA
1 TTTTAAAGT-TCCA-TTAGAAAAGCTTTTTGATTACGAA
*
2274887 TTTTAAAGTTTCATTAGAAAAGCTTTTTGATTACGAA
1 TTTTAAAGTTCCATTAGAAAAGCTTTTTGATTACGAA
2274924 TTTTAAA
1 TTTTAAA
2274931 TTTCATAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 13 0.34
37 16 0.42
38 9 0.24
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (37 bp):
TTTTAAAGTTCCATTAGAAAAGCTTTTTGATTACGAA
Found at i:2275358 original size:17 final size:17
Alignment explanation
Indices: 2275315--2275347 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2275305 TATTTTAACC
*
2275315 TTTTGGTTTTAGTTTTA
1 TTTTAGTTTTAGTTTTA
2275332 TTTTAGTTTTAGTTTT
1 TTTTAGTTTTAGTTTT
2275348 TTTATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (17 bp):
TTTTAGTTTTAGTTTTA
Found at i:2275914 original size:24 final size:23
Alignment explanation
Indices: 2275876--2275940 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
2275866 TAGTTGGGTT
* *
2275876 GAATTTTTGGGTTTTTTTTTTTG
1 GAATTTTTAGGTTTTTTTTCTTG
2275899 GAATTTTTAGGTTTTTTTTCTTG
1 GAATTTTTAGGTTTTTTTTCTTG
*
2275922 GAAATTTTTAGGATTTTTT
1 G-AATTTTTAGGTTTTTTT
2275941 AAGAAATTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 22 0.58
24 16 0.42
ACGTcount: A:0.15, C:0.02, G:0.18, T:0.65
Consensus pattern (23 bp):
GAATTTTTAGGTTTTTTTTCTTG
Found at i:2276333 original size:7 final size:7
Alignment explanation
Indices: 2276314--2276404 Score: 53
Period size: 7 Copynumber: 12.7 Consensus size: 7
2276304 CAATCATAGG
2276314 TTTTTT-
1 TTTTTTA
2276320 TTCTTTTA
1 TT-TTTTA
2276328 TTTTTTA
1 TTTTTTA
2276335 TTTTAATT-
1 TTTT--TTA
*
2276343 TTATTTCA
1 TT-TTTTA
*
2276351 TGTTTTA
1 TTTTTTA
2276358 TTTTATT-
1 TTTT-TTA
*
2276365 TTTTATA
1 TTTTTTA
*
2276372 TTTTTTG
1 TTTTTTA
*
2276379 TTTTATA
1 TTTTTTA
*
2276386 TTTTATA
1 TTTTTTA
*
2276393 TTTATTA
1 TTTTTTA
2276400 TTTTT
1 TTTTT
2276405 AATTGTGATG
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
6 3 0.05
7 51 0.78
8 7 0.11
9 4 0.06
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (7 bp):
TTTTTTA
Found at i:2276333 original size:12 final size:12
Alignment explanation
Indices: 2276316--2276403 Score: 76
Period size: 12 Copynumber: 7.5 Consensus size: 12
2276306 ATCATAGGTT
*
2276316 TTTTTTCTTTTA
1 TTTTTTATTTTA
2276328 TTTTTTATTTTA
1 TTTTTTATTTTA
* *
2276340 -ATTTTATTTCA
1 TTTTTTATTTTA
*
2276351 TGTTTTATTTTA
1 TTTTTTATTTTA
2276363 TTTTTTA---TA
1 TTTTTTATTTTA
*
2276372 TTTTTTGTTTTA
1 TTTTTTATTTTA
*
2276384 TATTTTATATTTA
1 TTTTTTAT-TTTA
2276397 TTATTTT
1 TT-TTTT
2276404 TAATTGTGAT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
9 8 0.13
11 9 0.15
12 34 0.57
13 5 0.08
14 4 0.07
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:2276523 original size:24 final size:24
Alignment explanation
Indices: 2276470--2276528 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
2276460 TTTTATATAC
*
2276470 TTTTTT-CAT-ATTTTTTATGATA
1 TTTTTTGCATGATTTTTCATGATA
2276492 TTTATTTGCATGATTTTATCATGATA
1 TTT-TTTGCATGATTTT-TCATGATA
2276518 -TTTTTGCATGA
1 TTTTTTGCATGA
2276529 ATAATAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.09
23 3 0.09
24 12 0.38
25 7 0.22
26 7 0.22
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTTTTGCATGATTTTTCATGATA
Found at i:2276683 original size:25 final size:24
Alignment explanation
Indices: 2276632--2276708 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
2276622 TTTACATAAT
*
2276632 ATTTTTGCATGATGTTTTATGC-T-
1 ATTTTTGTATGATGTTTT-TGCATG
2276655 ATTTATTGTATGATGTTTTTGCATG
1 ATTT-TTGTATGATGTTTTTGCATG
* * **
2276680 ATTTTTATTATAATCATTTTGCATG
1 ATTTTT-GTATGATGTTTTTGCATG
2276705 ATTT
1 ATTT
2276709 ACTTTGCATG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 7 0.16
24 16 0.36
25 22 0.49
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.57
Consensus pattern (24 bp):
ATTTTTGTATGATGTTTTTGCATG
Found at i:2281062 original size:40 final size:42
Alignment explanation
Indices: 2281018--2281110 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 42
2281008 TTGTCCTCAT
*
2281018 TTTTTCAAAGTTGCGTGT-TTTCATTTTGAATG-AG-TCTTAA
1 TTTTTCAAAGTTGCGTGTCTTT-ATTTTGAAGGAAGCTCTTAA
* *
2281058 TTTTTC-AAGTTGTGTGTCTTTGTTTTGAAGGAAGCTCTTAA
1 TTTTTCAAAGTTGCGTGTCTTTATTTTGAAGGAAGCTCTTAA
*
2281099 TGTTT-AAAGTTG
1 TTTTTCAAAGTTG
2281111 TTTTGATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
39 18 0.40
40 11 0.24
41 16 0.36
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (42 bp):
TTTTTCAAAGTTGCGTGTCTTTATTTTGAAGGAAGCTCTTAA
Found at i:2290013 original size:17 final size:17
Alignment explanation
Indices: 2289970--2290002 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2289960 TCCAAAATTT
2289970 TTTA-TTATTTTGTTTA
1 TTTATTTATTTTGTTTA
2289986 TTTATTTATTTT-TTTA
1 TTTATTTATTTTGTTTA
2290002 T
1 T
2290003 ATTTCTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTATTTTGTTTA
Found at i:2292294 original size:88 final size:88
Alignment explanation
Indices: 2292193--2292382 Score: 220
Period size: 88 Copynumber: 2.2 Consensus size: 88
2292183 TGATGAATTT
* * * * ***
2292193 TTTTAAAGTTTCATAGCTTCTAGTGAGA-GAAGTTTTTTAATTTTTAAAGTTTCAAAGCCTATGG
1 TTTTAAAGTTTCATAGCATCTAGTGAAAGGAA-CTCTTTAATTTTTAAAGTTTCAAAGCCTACAA
* *
2292257 TTATAAGAGTTTTTTGGTTGCGAA
65 TTAGAAGAGTTTTTTGGTTACGAA
* * * *
2292281 TTTTAAAGTTTCATAGCATCTAGTGAAAGGAACTCTTTCATTTTTAAAGTTTTAAAGTCTCCAAT
1 TTTTAAAGTTTCATAGCATCTAGTGAAAGGAACTCTTTAATTTTTAAAGTTTCAAAGCCTACAAT
* * *
2292346 TAGAGGAGTTTTTTTGTTATGAA
66 TAGAAGAGTTTTTTGGTTACGAA
2292369 TTTTAAAGTTTCAT
1 TTTTAAAGTTTCAT
2292383 TAGAAAAGCT
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
88 82 0.96
89 3 0.04
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (88 bp):
TTTTAAAGTTTCATAGCATCTAGTGAAAGGAACTCTTTAATTTTTAAAGTTTCAAAGCCTACAAT
TAGAAGAGTTTTTTGGTTACGAA
Found at i:2292823 original size:18 final size:17
Alignment explanation
Indices: 2292797--2292851 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
2292787 TATTTTAACC
*
2292797 TTTTGGTTTTAGTTTTT
1 TTTTAGTTTTAGTTTTT
2292814 ATTTTAGTTTTAGATTTTT
1 -TTTTAGTTTTAG-TTTTT
* *
2292833 TTATTATTTTTGGTTTTT
1 TT-TTAGTTTTAGTTTTT
2292851 T
1 T
2292852 GCCATGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 19 0.59
19 13 0.41
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.75
Consensus pattern (17 bp):
TTTTAGTTTTAGTTTTT
Found at i:2293398 original size:24 final size:23
Alignment explanation
Indices: 2293360--2293424 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
2293350 TAGTTGGGTT
* *
2293360 GAATTTTTGGGTTTTTTTTTTTG
1 GAATTTTTAGGTTTTTTTTCTTG
2293383 GAATTTTTAGGTTTTTTTTCTTG
1 GAATTTTTAGGTTTTTTTTCTTG
*
2293406 GAAATTTTTAGGATTTTTT
1 G-AATTTTTAGGTTTTTTT
2293425 AAGAAATTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 22 0.58
24 16 0.42
ACGTcount: A:0.15, C:0.02, G:0.18, T:0.65
Consensus pattern (23 bp):
GAATTTTTAGGTTTTTTTTCTTG
Found at i:2293818 original size:11 final size:12
Alignment explanation
Indices: 2293797--2293823 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2293787 CAATCATAGG
2293797 TTTTTCTTTTTT
1 TTTTTCTTTTTT
2293809 TTTTTCTTTTTT
1 TTTTTCTTTTTT
2293821 TTT
1 TTT
2293824 ATTTTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:2293834 original size:12 final size:11
Alignment explanation
Indices: 2293804--2293888 Score: 52
Period size: 12 Copynumber: 7.6 Consensus size: 11
2293794 AGGTTTTTCT
* *
2293804 TTTTTTTTTTC
1 TTTTATTTTTA
2293815 TTTT-TTTTTA
1 TTTTATTTTTA
2293825 TTTTGA-TTTTA
1 TTTT-ATTTTTA
*
2293836 TTTCATGTTTTA
1 TTTTAT-TTTTA
2293848 TTTTA-TTTT-
1 TTTTATTTTTA
* *
2293857 TTATATTTTTTG
1 TTTTA-TTTTTA
2293869 TTTTATATTTTA
1 TTTTAT-TTTTA
2293881 TATTTATT
1 T-TTTATT
2293889 ATTTTTAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
9 4 0.07
10 14 0.24
11 17 0.29
12 19 0.32
13 5 0.08
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:2293865 original size:14 final size:14
Alignment explanation
Indices: 2293846--2293895 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
2293836 TTTCATGTTT
2293846 TATTTTATTTTTTA
1 TATTTTATTTTTTA
2293860 TATTTT-TTGTTTTA
1 TATTTTATT-TTTTA
2293874 TATTTTATATTTATTA
1 TATTTTAT-TTT-TTA
2293890 T-TTTTA
1 TATTTTA
2293896 ATTGTGATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.06
14 17 0.53
15 8 0.25
16 5 0.16
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (14 bp):
TATTTTATTTTTTA
Found at i:2293872 original size:21 final size:21
Alignment explanation
Indices: 2293843--2293893 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2293833 TTATTTCATG
*
2293843 TTTTATTTTATTTTTTATATT
1 TTTTATTTTATATTTTATATT
*
2293864 TTTTGTTTTATATTTTATATT
1 TTTTATTTTATATTTTATATT
*
2293885 TATTATTTT
1 TTTTATTTT
2293894 TAATTGTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTATTTTATATTTTATATT
Found at i:2294013 original size:24 final size:24
Alignment explanation
Indices: 2293960--2294018 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
2293950 TTTTATATAC
*
2293960 TTTTTT-CAT-ATTTTTTATGATA
1 TTTTTTGCATGATTTTTCATGATA
2293982 TTTATTTGCATGATTTTATCATGATA
1 TTT-TTTGCATGATTTT-TCATGATA
2294008 -TTTTTGCATGA
1 TTTTTTGCATGA
2294019 ATAATAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.09
23 3 0.09
24 12 0.38
25 7 0.22
26 7 0.22
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTTTTGCATGATTTTTCATGATA
Found at i:2294173 original size:25 final size:24
Alignment explanation
Indices: 2294122--2294198 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
2294112 TTTACATAAT
*
2294122 ATTTTTGCATGATGTTTTATGC-T-
1 ATTTTTGTATGATGTTTT-TGCATG
2294145 ATTTATTGTATGATGTTTTTGCATG
1 ATTT-TTGTATGATGTTTTTGCATG
* * **
2294170 ATTTTTATTATAATCATTTTGCATG
1 ATTTTT-GTATGATGTTTTTGCATG
2294195 ATTT
1 ATTT
2294199 ACTTTGCATG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 7 0.16
24 16 0.36
25 22 0.49
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.57
Consensus pattern (24 bp):
ATTTTTGTATGATGTTTTTGCATG
Found at i:2298546 original size:40 final size:41
Alignment explanation
Indices: 2298502--2298594 Score: 120
Period size: 40 Copynumber: 2.3 Consensus size: 41
2298492 TTGTCCTCAT
*
2298502 TTTTTCAAAGTTGCGTGT-TTTCATTTTGAATGAG-TCTTAA
1 TTTTTCAAAGTTGCGTGTCTTT-ATTTTGAAGGAGCTCTTAA
* *
2298542 TTTTTCAAAGTTGTGTGTCTTTGTTTTGAAGGAGCTCTTAA
1 TTTTTCAAAGTTGCGTGTCTTTATTTTGAAGGAGCTCTTAA
*
2298583 TGTTT-AAAGTTG
1 TTTTTCAAAGTTG
2298595 TTTTGATTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 34 0.72
41 13 0.28
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (41 bp):
TTTTTCAAAGTTGCGTGTCTTTATTTTGAAGGAGCTCTTAA
Found at i:2299857 original size:5 final size:5
Alignment explanation
Indices: 2299849--2299895 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
2299839 TCTTTTTTTT
* * * *
2299849 TTTCA TTTCA TTTCA TTTCA TTTCA ATTAA TTTAA TTTTA TTT-A TTT
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT
2299896 TAAATTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTCA
Found at i:2304171 original size:101 final size:100
Alignment explanation
Indices: 2304053--2304254 Score: 325
Period size: 101 Copynumber: 2.0 Consensus size: 100
2304043 CCATTTTAAT
*
2304053 ATAACCAAACACATACCTATATGCTCTCA-TACATCATACCTATGTGGACACTCTCAGTCTTCTC
1 ATAACCAAACACATACCTATATGC-C-CAGTACATCATACCTATGTGGACACTCTCAGTCTCCTC
* *
2304117 TAATTCATTCACAAACAAACATACACACCCATAAGAC
64 TAATCCACTCACAAACAAACATACACACCCATAAGAC
*
2304154 ATAACCAAACACATACCTATATGCCCATGTACATCATACCTATGTGGACCCTCTCAGTCTCCTCT
1 ATAACCAAACACATACCTATATGCCCA-GTACATCATACCTATGTGGACACTCTCAGTCTCCTCT
*
2304219 AATCCACTCACAAACAAACATATACACCCATAAGAC
65 AATCCACTCACAAACAAACATACACACCCATAAGAC
2304255 GTAGAGCCCC
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 2 0.02
100 1 0.01
101 91 0.97
ACGTcount: A:0.37, C:0.32, G:0.06, T:0.24
Consensus pattern (100 bp):
ATAACCAAACACATACCTATATGCCCAGTACATCATACCTATGTGGACACTCTCAGTCTCCTCTA
ATCCACTCACAAACAAACATACACACCCATAAGAC
Found at i:2304470 original size:52 final size:52
Alignment explanation
Indices: 2304410--2304517 Score: 139
Period size: 52 Copynumber: 2.1 Consensus size: 52
2304400 CTTCTCCTAT
* * * * *
2304410 AAGTCAAACTTGAC-TATTAAGAATCTTTTTTCTTTTAGAATTTTT-TTCTTGC
1 AAGTCAAACTT-ACTTATTAAAAATCATCTTTCTATTAAAATTTTTCTT-TTGC
2304462 AAGTCAAACTTACTTATTAAAAATCATCTTTCTATTAAAATTTTTCTTTTGC
1 AAGTCAAACTTACTTATTAAAAATCATCTTTCTATTAAAATTTTTCTTTTGC
2304514 AAGT
1 AAGT
2304518 TTTTTTGTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 2 0.04
52 45 0.92
53 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.47
Consensus pattern (52 bp):
AAGTCAAACTTACTTATTAAAAATCATCTTTCTATTAAAATTTTTCTTTTGC
Found at i:2307899 original size:2 final size:2
Alignment explanation
Indices: 2307892--2307927 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2307882 ATCTCAATTC
2307892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2307928 TCTAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2308348 original size:2 final size:2
Alignment explanation
Indices: 2308337--2308377 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
2308327 AACTATATCC
*
2308337 AT AT -T AT AT AT AT AT AT AT AT AT AA AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2308377 A
1 A
2308378 AGGGTCTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2313892 original size:30 final size:31
Alignment explanation
Indices: 2313853--2313914 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 31
2313843 TTAGTTAATC
2313853 TCAATGATGTTGAGATAT-AAAAGTAATACAT
1 TCAATGATGTTGAGATATCAAAA-TAATACAT
*
2313884 TCAA-GATGTTGAGATATCAAAATAATTCAT
1 TCAATGATGTTGAGATATCAAAATAATACAT
2313914 T
1 T
2313915 GAGGAATGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (31 bp):
TCAATGATGTTGAGATATCAAAATAATACAT
Found at i:2316850 original size:29 final size:31
Alignment explanation
Indices: 2316813--2316870 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
2316803 TATATTATCA
2316813 AAATAATTAAAT-ATAA-AAAAATTTAAACT
1 AAATAATTAAATAATAATAAAAATTTAAACT
* *
2316842 AAATCATTAAATAATAATAAATATTTAAA
1 AAATAATTAAATAATAATAAAAATTTAAA
2316871 TATTAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 4 0.16
31 10 0.40
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (31 bp):
AAATAATTAAATAATAATAAAAATTTAAACT
Found at i:2317090 original size:26 final size:26
Alignment explanation
Indices: 2317044--2317093 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2317034 TTTTTAAATC
*
2317044 TCCAATTAAATAAGTAGATAAAAACA
1 TCCAATTAAATAAATAGATAAAAACA
*
2317070 TCCATTTAAATAAAT-GAATAAAAA
1 TCCAATTAAATAAATAG-ATAAAAA
2317094 TATGTTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (26 bp):
TCCAATTAAATAAATAGATAAAAACA
Found at i:2317434 original size:2 final size:2
Alignment explanation
Indices: 2317427--2317453 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2317417 TTTTTGGTTA
2317427 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2317454 GTTCTATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2319953 original size:16 final size:16
Alignment explanation
Indices: 2319929--2319966 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
2319919 AAAAAATATA
*
2319929 TTTATTATTTATTTAAT
1 TTTA-TATTTATGTAAT
2319946 TTTATATTTATGTAAT
1 TTTATATTTATGTAAT
2319962 TTTAT
1 TTTAT
2319967 TAAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTATATTTATGTAAT
Found at i:2320987 original size:37 final size:37
Alignment explanation
Indices: 2320946--2321021 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
2320936 ACAAACACAA
2320946 ACCCAAACCCTTGTGCATCCTTTCAATATAACCAAAT
1 ACCCAAACCCTTGTGCATCCTTTCAATATAACCAAAT
2320983 ACCCAAACCCTTGTGCATCCTTTCAATATAACCAAAT
1 ACCCAAACCCTTGTGCATCCTTTCAATATAACCAAAT
2321020 AC
1 AC
2321022 ATACTCATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.36, C:0.33, G:0.05, T:0.26
Consensus pattern (37 bp):
ACCCAAACCCTTGTGCATCCTTTCAATATAACCAAAT
Found at i:2321365 original size:11 final size:11
Alignment explanation
Indices: 2321349--2321390 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2321339 GCAATATCTG
*
2321349 ACAAATCCCAA
1 ACAAATCTCAA
*
2321360 ACAAATCTCTA
1 ACAAATCTCAA
2321371 ACAAATCTCAA
1 ACAAATCTCAA
*
2321382 ACAGATCTC
1 ACAAATCTC
2321391 TTATGAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:2321374 original size:22 final size:22
Alignment explanation
Indices: 2321349--2321391 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2321339 GCAATATCTG
2321349 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
* *
2321371 ACAAATCTCAAACAGATCTCT
1 ACAAATCCCAAACAAATCTCT
2321392 TATGAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Done.